HEADER METAL TRANSPORT 26-JUN-07 2Z51 TITLE CRYSTAL STRUCTURE OF ARABIDOPSIS CNFU INVOLVED IN IRON-SULFUR CLUSTER TITLE 2 BIOSYNTHESIS CAVEAT 2Z51 CHIRALITY ERROR AT CA CENTER OF MET A 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NIFU-LIKE PROTEIN 2, CHLOROPLAST; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 1-154; COMPND 5 SYNONYM: ATCNFU2, ATCNFU-V; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARABIDOPSIS THALIANA; SOURCE 3 ORGANISM_COMMON: MOUSE-EAR CRESS; SOURCE 4 GENE: NIFU2, CNFU2, NFU2; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET21D KEYWDS CNFU, IRON-SULFUR CLUSTER BIOSYNTHESIS, NIF, METAL TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR T.YABE,E.YAMASHITA,M.NAKAI REVDAT 4 13-MAR-24 2Z51 1 REMARK SEQADV LINK REVDAT 3 27-JUN-18 2Z51 1 SEQADV REVDAT 2 24-FEB-09 2Z51 1 VERSN REVDAT 1 15-JUL-08 2Z51 0 JRNL AUTH T.YABE,E.YAMASHITA,A.KIKUCHI,K.MORIMOTO,A.NAKAGAWA, JRNL AUTH 2 T.TSUKIHARA,M.NAKAI JRNL TITL STRUCTURAL ANALYSIS OF ARABIDOPSIS CNFU PROTEIN: AN JRNL TITL 2 IRON-SULFUR CLUSTER BIOSYNTHETIC SCAFFOLD IN CHLOROPLASTS. JRNL REF J.MOL.BIOL. 2008 JRNL REFN ESSN 1089-8638 JRNL PMID 18585737 JRNL DOI 10.1016/J.JMB.2008.05.072 REMARK 2 REMARK 2 RESOLUTION. 1.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.31 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 32814 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.137 REMARK 3 R VALUE (WORKING SET) : 0.135 REMARK 3 FREE R VALUE : 0.173 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1766 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.38 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2331 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 97.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.1480 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1171 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 283 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.33 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.08000 REMARK 3 B22 (A**2) : -0.21000 REMARK 3 B33 (A**2) : 0.30000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.051 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.051 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.029 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.546 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.969 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1206 ; 0.030 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1632 ; 1.634 ; 2.019 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 153 ; 5.959 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 48 ;35.698 ;26.042 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 240 ;14.004 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;21.466 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 204 ; 0.292 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 862 ; 0.014 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 616 ; 0.270 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 857 ; 0.319 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 225 ; 0.348 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.139 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 65 ; 0.289 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 81 ; 0.475 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.026 ; 0.200 REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 801 ; 3.199 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1271 ; 4.119 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 445 ; 5.766 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 361 ; 7.891 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 1246 ; 3.389 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 285 ;14.982 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 1193 ; 7.332 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2Z51 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-JUN-07. REMARK 100 THE DEPOSITION ID IS D_1000027529. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-DEC-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 3 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : MIRROR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER DIP-6040 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 34580 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.350 REMARK 200 RESOLUTION RANGE LOW (A) : 61.310 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 26.600 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.38 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.95 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.28 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 1000, MGCL2, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2870 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15700 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -46.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 57.39400 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 203 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 238 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 290 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 324 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 333 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 423 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 448 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 455 LIES ON A SPECIAL POSITION. REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OE2 GLU A 7 O HOH A 331 1.29 REMARK 500 CB SER A 11 O HOH A 481 1.64 REMARK 500 NH2 ARG A 17 O HOH A 483 1.78 REMARK 500 O HOH A 274 O HOH A 482 1.99 REMARK 500 OE2 GLU A 10 O HOH A 477 2.00 REMARK 500 OE1 GLU A 10 O HOH A 470 2.02 REMARK 500 CG2 THR A 52 O HOH A 473 2.07 REMARK 500 O CYS A 45 O HOH A 473 2.07 REMARK 500 O HOH A 314 O HOH A 434 2.07 REMARK 500 OE2 GLU A 7 O HOH A 444 2.08 REMARK 500 O HOH A 432 O HOH A 453 2.08 REMARK 500 O HOH A 367 O HOH A 435 2.08 REMARK 500 OD2 ASP A 116 O HOH A 271 2.10 REMARK 500 O HOH A 274 O HOH A 445 2.10 REMARK 500 O HOH A 349 O HOH A 477 2.10 REMARK 500 O HOH A 287 O HOH A 465 2.11 REMARK 500 O HOH A 274 O HOH A 428 2.11 REMARK 500 O HOH A 361 O HOH A 438 2.15 REMARK 500 O HOH A 307 O HOH A 438 2.16 REMARK 500 O HOH A 444 O HOH A 457 2.18 REMARK 500 O HOH A 276 O HOH A 469 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 424 O HOH A 424 3656 1.46 REMARK 500 O HOH A 271 O HOH A 480 4555 1.82 REMARK 500 O HOH A 325 O HOH A 469 1554 1.93 REMARK 500 O HOH A 392 O HOH A 396 4555 1.97 REMARK 500 O HOH A 276 O HOH A 325 1556 2.01 REMARK 500 O HOH A 274 O HOH A 279 3555 2.02 REMARK 500 O HOH A 418 O HOH A 471 1554 2.06 REMARK 500 OD1 ASP A 33 O HOH A 271 4555 2.06 REMARK 500 O HOH A 274 O HOH A 437 3555 2.08 REMARK 500 O HOH A 271 O HOH A 430 4555 2.08 REMARK 500 O HOH A 332 O HOH A 429 2665 2.11 REMARK 500 O HOH A 424 O HOH A 441 3655 2.12 REMARK 500 O HOH A 297 O HOH A 444 3555 2.15 REMARK 500 O HOH A 340 O HOH A 444 3555 2.16 REMARK 500 O HOH A 261 O HOH A 440 3655 2.18 REMARK 500 SG CYS A 45 SG CYS A 48 4565 2.18 REMARK 500 OG SER A 51 OG SER A 51 4565 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 7 CB GLU A 7 CG 0.175 REMARK 500 GLU A 7 CG GLU A 7 CD 0.167 REMARK 500 GLU A 7 CD GLU A 7 OE1 0.121 REMARK 500 GLU A 7 CD GLU A 7 OE2 0.067 REMARK 500 SER A 11 CB SER A 11 OG 0.106 REMARK 500 GLU A 31 CG GLU A 31 CD 0.099 REMARK 500 ARG A 38 CZ ARG A 38 NH1 0.087 REMARK 500 GLU A 91 CD GLU A 91 OE2 -0.098 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 202 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN A 35 OD1 REMARK 620 2 GLU A 69 OE2 99.2 REMARK 620 3 HOH A 287 O 81.8 82.9 REMARK 620 4 HOH A 417 O 153.7 75.8 122.3 REMARK 620 5 HOH A 452 O 86.6 162.4 81.6 105.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 143 OE1 REMARK 620 2 HOH A 215 O 85.2 REMARK 620 3 HOH A 291 O 84.9 89.6 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 202 REMARK 999 REMARK 999 SEQUENCE REMARK 999 VAL A 36 WAS MUTATED BY PCR ERROR DBREF 2Z51 A 2 154 UNP Q93W20 NIFU2_ARATH 83 235 SEQADV 2Z51 MET A 1 UNP Q93W20 INITIATING METHIONINE SEQADV 2Z51 VAL A 36 UNP Q93W20 ILE 117 SEE REMARK 999 SEQRES 1 A 154 MET VAL PRO LEU THR GLU GLU ASN VAL GLU SER VAL LEU SEQRES 2 A 154 ASP GLU ILE ARG PRO TYR LEU MET SER ASP GLY GLY ASN SEQRES 3 A 154 VAL ALA LEU HIS GLU ILE ASP GLY ASN VAL VAL ARG VAL SEQRES 4 A 154 LYS LEU GLN GLY ALA CYS GLY SER CYS PRO SER SER THR SEQRES 5 A 154 MET THR MET LYS MET GLY ILE GLU ARG ARG LEU MET GLU SEQRES 6 A 154 LYS ILE PRO GLU ILE VAL ALA VAL GLU ALA LEU PRO ASP SEQRES 7 A 154 GLU GLU THR GLY LEU GLU LEU ASN GLU GLU ASN ILE GLU SEQRES 8 A 154 LYS VAL LEU GLU GLU ILE ARG PRO TYR LEU ILE GLY THR SEQRES 9 A 154 ALA ASP GLY SER LEU ASP LEU VAL GLU ILE GLU ASP PRO SEQRES 10 A 154 ILE VAL LYS ILE ARG ILE THR GLY PRO ALA ALA GLY VAL SEQRES 11 A 154 MET THR VAL ARG VAL ALA VAL THR GLN LYS LEU ARG GLU SEQRES 12 A 154 LYS ILE PRO SER ILE ALA ALA VAL GLN LEU ILE HET MG A 201 1 HET MG A 202 1 HETNAM MG MAGNESIUM ION FORMUL 2 MG 2(MG 2+) FORMUL 4 HOH *283(H2 O) HELIX 1 1 THR A 5 ASP A 23 1 19 HELIX 2 2 GLY A 43 SER A 47 1 5 HELIX 3 3 CYS A 48 SER A 50 5 3 HELIX 4 4 SER A 51 ILE A 67 1 17 HELIX 5 5 ASN A 86 ARG A 98 1 13 HELIX 6 6 PRO A 99 LEU A 101 5 3 HELIX 7 7 ILE A 102 ASP A 106 5 5 HELIX 8 8 GLY A 125 VAL A 130 5 6 HELIX 9 9 MET A 131 ILE A 145 1 15 SHEET 1 A 3 GLY A 25 ASP A 33 0 SHEET 2 A 3 VAL A 36 GLN A 42 -1 O VAL A 36 N ASP A 33 SHEET 3 A 3 ALA A 72 ALA A 75 1 O GLU A 74 N VAL A 39 SHEET 1 B 3 SER A 108 GLU A 115 0 SHEET 2 B 3 ILE A 118 THR A 124 -1 O LYS A 120 N VAL A 112 SHEET 3 B 3 ALA A 150 LEU A 153 1 O GLN A 152 N VAL A 119 LINK OD1 ASN A 35 MG MG A 202 1555 1555 2.11 LINK OE2 GLU A 69 MG MG A 202 1555 1555 1.80 LINK OE1AGLU A 143 MG MG A 201 1555 1555 2.00 LINK MG MG A 201 O HOH A 215 1555 1555 2.21 LINK MG MG A 201 O HOH A 291 1555 1555 1.94 LINK MG MG A 202 O HOH A 287 1555 1555 2.28 LINK MG MG A 202 O HOH A 417 1555 1555 2.08 LINK MG MG A 202 O HOH A 452 1555 1555 1.86 CISPEP 1 ASP A 116 PRO A 117 0 12.86 SITE 1 AC1 7 LYS A 56 GLU A 143 HOH A 215 HOH A 221 SITE 2 AC1 7 HOH A 239 HOH A 291 HOH A 304 SITE 1 AC2 7 ASN A 35 GLU A 69 HOH A 287 HOH A 315 SITE 2 AC2 7 HOH A 381 HOH A 417 HOH A 452 CRYST1 43.546 57.394 61.303 90.00 90.00 90.00 P 2 2 2 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.022964 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017423 0.000000 0.00000 SCALE3 0.000000 0.000000 0.016312 0.00000